data_A1L62 # _chem_comp.id A1L62 _chem_comp.name Zandelisib _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C31 H38 F2 N8 O" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "4-[2-[bis(fluoranyl)methyl]benzimidazol-1-yl]-~{N}-[2-methyl-1-[2-(1-methylpiperidin-4-yl)phenyl]propan-2-yl]-6-morpholin-4-yl-1,3,5-triazin-2-amine; ME-401; 4-[2-(difluoromethyl)benzimidazol-1-yl]-N-[2-methyl-1-[2-(1-methylpiperidin-4-yl)phenyl]propan-2-yl]-6-morpholin-4-yl-1,3,5-triazin-2-amine" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-12-20 _chem_comp.pdbx_modified_date 2025-06-06 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 576.683 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1L62 _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 9L3R _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBJ _chem_comp.pdbx_pcm ? # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal A1L62 N1 N1 N 0 1 N N N N N N 45.164 13.859 33.157 5.374 2.435 -2.749 N1 A1L62 1 A1L62 N3 N2 N 0 1 Y N N N N N 35.833 11.248 32.543 -0.979 -0.364 0.574 N3 A1L62 2 A1L62 C4 C1 C 0 1 Y N N N N N 41.963 12.413 29.868 5.892 -0.854 0.552 C4 A1L62 3 A1L62 C5 C2 C 0 1 Y N N N N N 41.115 12.045 28.825 6.140 -1.819 1.511 C5 A1L62 4 A1L62 C6 C3 C 0 1 Y N N N N N 39.744 12.088 29.005 5.328 -1.910 2.626 C6 A1L62 5 A1L62 C7 C4 C 0 1 N N N N N N 42.474 13.217 32.199 4.567 1.075 -0.333 C7 A1L62 6 A1L62 C8 C5 C 0 1 N N N N N N 43.571 12.148 32.337 5.722 2.080 -0.351 C8 A1L62 7 A1L62 C10 C6 C 0 1 N N N N N N 39.694 12.638 35.047 1.233 -0.987 2.283 C10 A1L62 8 A1L62 C13 C7 C 0 1 Y N N N N N 35.190 13.824 32.294 -2.970 1.393 0.681 C13 A1L62 9 A1L62 C15 C8 C 0 1 N N N N N N 35.160 17.171 33.573 -5.780 3.475 -0.477 C15 A1L62 10 A1L62 C17 C9 C 0 1 N N N N N N 33.597 15.627 31.722 -3.551 3.583 1.301 C17 A1L62 11 A1L62 CA C10 C 0 1 N N N N N N 44.131 14.902 33.073 4.241 1.500 -2.771 CA A1L62 12 A1L62 CB C11 C 0 1 N N N N N N 43.130 14.588 31.961 4.451 0.417 -1.710 CB A1L62 13 A1L62 CD C12 C 0 1 N N N N N N 39.359 13.307 32.583 2.866 0.882 1.996 CD A1L62 14 A1L62 CE C13 C 0 1 N N N N N N 39.090 12.241 33.690 1.591 0.241 1.444 CE A1L62 15 A1L62 C1 C14 C 0 1 Y N N N N N 39.226 12.501 30.229 4.269 -1.036 2.783 C1 A1L62 16 A1L62 C11 C15 C 0 1 N N N N N N 39.692 10.865 33.344 1.819 -0.182 -0.008 C11 A1L62 17 A1L62 C12 C16 C 0 1 Y N N N N N 34.761 11.638 31.829 -2.189 -0.705 0.145 C12 A1L62 18 A1L62 C14 C17 C 0 1 N N N N N N 35.854 16.156 32.658 -4.601 2.505 -0.593 C14 A1L62 19 A1L62 C16 C18 C 0 1 N N N N N N 33.028 16.658 32.706 -4.740 4.543 1.399 C16 A1L62 20 A1L62 C18 C19 C 0 1 Y N N N N N 34.231 9.548 30.434 -3.589 -2.457 -0.863 C18 A1L62 21 A1L62 C19 C20 C 0 1 Y N N N N N 32.087 9.651 30.411 -2.164 -4.093 -1.018 C19 A1L62 22 A1L62 C1A C21 C 0 1 Y N N N N N 32.498 10.752 31.152 -1.485 -3.003 -0.450 C1A A1L62 23 A1L62 C1B C22 C 0 1 Y N N N N N 30.721 9.409 30.198 -1.480 -5.292 -1.235 C1B A1L62 24 A1L62 C1C C23 C 0 1 Y N N N N N 29.780 10.291 30.733 -0.151 -5.392 -0.893 C1C A1L62 25 A1L62 C1D C24 C 0 1 Y N N N N N 30.196 11.395 31.471 0.516 -4.311 -0.335 C1D A1L62 26 A1L62 C1E C25 C 0 1 Y N N N N N 31.556 11.644 31.689 -0.145 -3.122 -0.111 C1E A1L62 27 A1L62 C1F C26 C 0 1 N N N N N N 35.620 9.083 30.189 -4.871 -1.670 -0.957 C1F A1L62 28 A1L62 C2 C27 C 0 1 Y N N N N N 40.061 12.873 31.306 4.021 -0.071 1.825 C2 A1L62 29 A1L62 C3 C28 C 0 1 Y N N N N N 41.465 12.837 31.120 4.833 0.020 0.709 C3 A1L62 30 A1L62 C9 C29 C 0 1 N N N N N N 44.578 12.537 33.422 5.476 3.114 -1.451 C9 A1L62 31 A1L62 CC C30 C 0 1 N N N N N N 46.145 14.199 34.188 5.275 3.407 -3.846 CC A1L62 32 A1L62 CF C31 C 0 1 Y N N N N N 36.554 12.219 33.099 -0.764 0.856 1.058 CF A1L62 33 A1L62 F1 F1 F 0 1 N N N N N N 35.626 7.869 29.561 -5.227 -1.205 0.313 F1 A1L62 34 A1L62 F2 F2 F 0 1 N N N N N N 36.283 9.935 29.359 -4.688 -0.582 -1.818 F2 A1L62 35 A1L62 N2 N3 N 0 1 N N N N N N 37.655 12.032 33.890 0.493 1.209 1.504 N2 A1L62 36 A1L62 N4 N4 N 0 1 Y N N N N N 34.431 12.925 31.690 -3.184 0.172 0.198 N4 A1L62 37 A1L62 N5 N5 N 0 1 Y N N N N N 36.242 13.495 33.009 -1.760 1.734 1.111 N5 A1L62 38 A1L62 N6 N6 N 0 1 N N N N N N 34.894 15.151 32.195 -4.005 2.305 0.736 N6 A1L62 39 A1L62 N7 N7 N 0 1 Y N N N N N 33.893 10.695 31.155 -2.413 -1.980 -0.361 N7 A1L62 40 A1L62 N8 N8 N 0 1 Y N N N N N 33.154 8.925 29.983 -3.443 -3.691 -1.243 N8 A1L62 41 A1L62 O1 O1 O 0 1 N N N N N N 33.978 17.703 32.956 -5.326 4.701 0.104 O1 A1L62 42 A1L62 H2 H2 H 0 1 N N N N N N 43.031 12.373 29.715 6.529 -0.780 -0.317 H2 A1L62 43 A1L62 H3 H3 H 0 1 N N N N N N 41.527 11.727 27.879 6.968 -2.502 1.388 H3 A1L62 44 A1L62 H4 H4 H 0 1 N N N N N N 39.081 11.803 28.202 5.522 -2.664 3.374 H4 A1L62 45 A1L62 H5 H5 H 0 1 N N N N N N 41.937 13.268 33.157 3.637 1.594 -0.096 H5 A1L62 46 A1L62 H7 H6 H 0 1 N N N N N N 43.106 11.187 32.604 5.783 2.582 0.615 H7 A1L62 47 A1L62 H6 H7 H 0 1 N N N N N N 44.098 12.046 31.377 6.657 1.555 -0.547 H6 A1L62 48 A1L62 H15 H8 H 0 1 N N N N N N 39.476 11.855 35.789 1.070 -0.686 3.318 H15 A1L62 49 A1L62 H16 H9 H 0 1 N N N N N N 40.783 12.753 34.944 0.325 -1.444 1.891 H16 A1L62 50 A1L62 H14 H10 H 0 1 N N N N N N 39.255 13.590 35.379 2.050 -1.708 2.239 H14 A1L62 51 A1L62 H1D H11 H 0 1 N N N N N N 34.881 16.674 34.514 -6.189 3.671 -1.467 H1D A1L62 52 A1L62 H1C H12 H 0 1 N N N N N N 35.856 17.996 33.786 -6.552 3.037 0.156 H1C A1L62 53 A1L62 H20 H13 H 0 1 N N N N N N 33.718 16.094 30.734 -2.786 4.016 0.656 H20 A1L62 54 A1L62 H21 H14 H 0 1 N N N N N N 32.903 14.777 31.643 -3.136 3.415 2.295 H21 A1L62 55 A1L62 HB H15 H 0 1 N N N N N N 43.597 14.959 34.033 3.319 2.041 -2.560 HB A1L62 56 A1L62 HA H16 H 0 1 N N N N N N 44.611 15.869 32.863 4.173 1.036 -3.755 HA A1L62 57 A1L62 HC H17 H 0 1 N N N N N N 43.655 14.575 30.994 5.366 -0.134 -1.928 HC A1L62 58 A1L62 HD H18 H 0 1 N N N N N N 42.351 15.364 31.945 3.603 -0.268 -1.716 HD A1L62 59 A1L62 H11 H19 H 0 1 N N N N N N 39.974 14.098 33.038 3.073 1.804 1.454 H11 A1L62 60 A1L62 H12 H20 H 0 1 N N N N N N 38.384 13.723 32.291 2.733 1.104 3.054 H12 A1L62 61 A1L62 H1 H21 H 0 1 N N N N N N 38.155 12.538 30.359 3.634 -1.108 3.654 H1 A1L62 62 A1L62 H17 H22 H 0 1 N N N N N N 39.474 10.154 34.155 0.939 -0.709 -0.376 H17 A1L62 63 A1L62 H18 H23 H 0 1 N N N N N N 39.251 10.497 32.406 1.996 0.702 -0.621 H18 A1L62 64 A1L62 H19 H24 H 0 1 N N N N N N 40.781 10.961 33.224 2.686 -0.841 -0.062 H19 A1L62 65 A1L62 H1A H25 H 0 1 N N N N N N 36.661 15.658 33.215 -4.953 1.550 -0.982 H1A A1L62 66 A1L62 H1B H26 H 0 1 N N N N N N 36.278 16.681 31.789 -3.854 2.920 -1.269 H1B A1L62 67 A1L62 H1E H27 H 0 1 N N N N N N 32.786 16.156 33.654 -5.481 4.135 2.086 H1E A1L62 68 A1L62 H1F H28 H 0 1 N N N N N N 32.114 17.097 32.280 -4.398 5.511 1.765 H1F A1L62 69 A1L62 H22 H29 H 0 1 N N N N N N 30.401 8.550 29.627 -1.993 -6.138 -1.668 H22 A1L62 70 A1L62 H23 H30 H 0 1 N N N N N N 28.726 10.116 30.574 0.377 -6.319 -1.060 H23 A1L62 71 A1L62 H24 H31 H 0 1 N N N N N N 29.459 12.069 31.881 1.560 -4.403 -0.071 H24 A1L62 72 A1L62 H25 H32 H 0 1 N N N N N N 31.874 12.505 32.259 0.379 -2.285 0.326 H25 A1L62 73 A1L62 H26 H33 H 0 1 N N N N N N 36.140 9.012 31.156 -5.663 -2.311 -1.344 H26 A1L62 74 A1L62 H9 H34 H 0 1 N N N N N N 44.065 12.561 34.395 6.304 3.822 -1.476 H9 A1L62 75 A1L62 H8 H35 H 0 1 N N N N N N 45.383 11.787 33.450 4.548 3.648 -1.247 H8 A1L62 76 A1L62 HE H36 H 0 1 N N N N N N 46.573 15.190 33.975 4.350 3.976 -3.745 HE A1L62 77 A1L62 H10 H37 H 0 1 N N N N N N 45.652 14.216 35.171 6.126 4.087 -3.806 H10 A1L62 78 A1L62 HF H38 H 0 1 N N N N N N 46.947 13.446 34.193 5.276 2.880 -4.800 HF A1L62 79 A1L62 H13 H39 H 0 1 N N N N N N 37.598 11.064 34.133 0.650 2.099 1.857 H13 A1L62 80 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal A1L62 C1 C2 DOUB Y N 1 A1L62 C1 C6 SING Y N 2 A1L62 C3 C2 SING Y N 3 A1L62 C2 CD SING N N 4 A1L62 C4 C3 DOUB Y N 5 A1L62 C7 C3 SING N N 6 A1L62 C5 C4 SING Y N 7 A1L62 C6 C5 DOUB Y N 8 A1L62 C7 C8 SING N N 9 A1L62 CB C7 SING N N 10 A1L62 C8 C9 SING N N 11 A1L62 C9 N1 SING N N 12 A1L62 N1 CA SING N N 13 A1L62 CC N1 SING N N 14 A1L62 CA CB SING N N 15 A1L62 CD CE SING N N 16 A1L62 CE N2 SING N N 17 A1L62 C10 CE SING N N 18 A1L62 C11 CE SING N N 19 A1L62 N2 CF SING N N 20 A1L62 CF N3 DOUB Y N 21 A1L62 CF N5 SING Y N 22 A1L62 N3 C12 SING Y N 23 A1L62 N4 C12 DOUB Y N 24 A1L62 C12 N7 SING N N 25 A1L62 C13 N4 SING Y N 26 A1L62 N5 C13 DOUB Y N 27 A1L62 N6 C13 SING N N 28 A1L62 N6 C14 SING N N 29 A1L62 C17 N6 SING N N 30 A1L62 N7 C18 SING Y N 31 A1L62 N7 C1A SING Y N 32 A1L62 C14 C15 SING N N 33 A1L62 C15 O1 SING N N 34 A1L62 O1 C16 SING N N 35 A1L62 C16 C17 SING N N 36 A1L62 N8 C18 DOUB Y N 37 A1L62 C18 C1F SING N N 38 A1L62 C19 N8 SING Y N 39 A1L62 C19 C1A DOUB Y N 40 A1L62 C1B C19 SING Y N 41 A1L62 C1A C1E SING Y N 42 A1L62 C1C C1B DOUB Y N 43 A1L62 C1D C1C SING Y N 44 A1L62 C1E C1D DOUB Y N 45 A1L62 F1 C1F SING N N 46 A1L62 C1F F2 SING N N 47 A1L62 C4 H2 SING N N 48 A1L62 C5 H3 SING N N 49 A1L62 C6 H4 SING N N 50 A1L62 C7 H5 SING N N 51 A1L62 C8 H7 SING N N 52 A1L62 C8 H6 SING N N 53 A1L62 C10 H15 SING N N 54 A1L62 C10 H16 SING N N 55 A1L62 C10 H14 SING N N 56 A1L62 C15 H1D SING N N 57 A1L62 C15 H1C SING N N 58 A1L62 C17 H20 SING N N 59 A1L62 C17 H21 SING N N 60 A1L62 CA HB SING N N 61 A1L62 CA HA SING N N 62 A1L62 CB HC SING N N 63 A1L62 CB HD SING N N 64 A1L62 CD H11 SING N N 65 A1L62 CD H12 SING N N 66 A1L62 C1 H1 SING N N 67 A1L62 C11 H17 SING N N 68 A1L62 C11 H18 SING N N 69 A1L62 C11 H19 SING N N 70 A1L62 C14 H1A SING N N 71 A1L62 C14 H1B SING N N 72 A1L62 C16 H1E SING N N 73 A1L62 C16 H1F SING N N 74 A1L62 C1B H22 SING N N 75 A1L62 C1C H23 SING N N 76 A1L62 C1D H24 SING N N 77 A1L62 C1E H25 SING N N 78 A1L62 C1F H26 SING N N 79 A1L62 C9 H9 SING N N 80 A1L62 C9 H8 SING N N 81 A1L62 CC HE SING N N 82 A1L62 CC H10 SING N N 83 A1L62 CC HF SING N N 84 A1L62 N2 H13 SING N N 85 # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor A1L62 InChI InChI 1.06 "InChI=1S/C31H38F2N8O/c1-31(2,20-22-8-4-5-9-23(22)21-12-14-39(3)15-13-21)38-28-35-29(40-16-18-42-19-17-40)37-30(36-28)41-25-11-7-6-10-24(25)34-27(41)26(32)33/h4-11,21,26H,12-20H2,1-3H3,(H,35,36,37,38)" A1L62 InChIKey InChI 1.06 WPFUFWIHMYZXSF-UHFFFAOYSA-N A1L62 SMILES_CANONICAL CACTVS 3.385 "CN1CCC(CC1)c2ccccc2CC(C)(C)Nc3nc(nc(n3)n4c(nc5ccccc45)C(F)F)N6CCOCC6" A1L62 SMILES CACTVS 3.385 "CN1CCC(CC1)c2ccccc2CC(C)(C)Nc3nc(nc(n3)n4c(nc5ccccc45)C(F)F)N6CCOCC6" A1L62 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(C)(Cc1ccccc1C2CCN(CC2)C)Nc3nc(nc(n3)N4CCOCC4)n5c6ccccc6nc5C(F)F" A1L62 SMILES "OpenEye OEToolkits" 2.0.7 "CC(C)(Cc1ccccc1C2CCN(CC2)C)Nc3nc(nc(n3)N4CCOCC4)n5c6ccccc6nc5C(F)F" # _pdbx_chem_comp_identifier.comp_id A1L62 _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "4-[2-[bis(fluoranyl)methyl]benzimidazol-1-yl]-~{N}-[2-methyl-1-[2-(1-methylpiperidin-4-yl)phenyl]propan-2-yl]-6-morpholin-4-yl-1,3,5-triazin-2-amine" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1L62 "Create component" 2024-12-20 PDBJ A1L62 "Modify synonyms" 2024-12-24 PDBJ A1L62 "Initial release" 2025-06-11 RCSB # loop_ _pdbx_chem_comp_synonyms.ordinal _pdbx_chem_comp_synonyms.comp_id _pdbx_chem_comp_synonyms.name _pdbx_chem_comp_synonyms.provenance _pdbx_chem_comp_synonyms.type 1 A1L62 "4-[2-[bis(fluoranyl)methyl]benzimidazol-1-yl]-~{N}-[2-methyl-1-[2-(1-methylpiperidin-4-yl)phenyl]propan-2-yl]-6-morpholin-4-yl-1,3,5-triazin-2-amine" PDB ? 2 A1L62 ME-401 CHEMBL ? 3 A1L62 "4-[2-(difluoromethyl)benzimidazol-1-yl]-N-[2-methyl-1-[2-(1-methylpiperidin-4-yl)phenyl]propan-2-yl]-6-morpholin-4-yl-1,3,5-triazin-2-amine" AUTHOR ? #